HsaINT0112125 @ hg19
Intron Retention
Gene
ENSG00000183091 | NEB
Description
nebulin [Source:HGNC Symbol;Acc:7720]
Coordinates
chr2:152374832-152375583:-
Coord C1 exon
chr2:152375479-152375583
Coord A exon
chr2:152374937-152375478
Coord C2 exon
chr2:152374832-152374936
Length
542 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGC
5' ss Score
4.33
3' ss Seq
TTTTGCCGCCTTCCCCTCAGTAC
3' ss Score
8.28
Exon sequences
Seq C1 exon
GTTAAATACAAGGCTGACCTGAAGAAACTTCACAAACCCGTGACTGACATGAAGGAGTCTCTGATCATGAATCATGTCCTGAATACAAGCCAACTTGCCAGTTCT
Seq A exon
GTAAGCTCAGTCATTTGCTCCAGAAACAGCTTGTTTTACCCATTTGGAACTAAATTCTTTCTGAGCCCAGATGCATCTTCTTCTCTGCTACTGATACCCTAGATTTATTACAAAACTGTTCTCATTTGAGTGTATTCTTCCAAATGACAACATTAATCTACCAATTCTCCATTGTCTGTAACACCTCTCAGAATGTAAAAATGCTTCTTTTTAAAAAATATTTAAACTTTGCCCTCCAATTAACCATTCCCTTTTCTCTAAGGACATAGAAATACCCTCTGGAATAGTTTCTTTCACTTTTAACTTTTTACTTATAACACCTACTTTGAACAAGCCACATAACCTAAGTGTTTACATCTTAACGGACAATACTGAACTTGGATCCTCATTTTTAAAACTTTTTCTTAACCTCCTGTTTAGTGTTTGCCATTTTTAGTTTGATCTTGACAATGGTGCTGTGTAAACGTCTAATCTAAAGAGGAAAAATAGGAATGCTGAGCAGCTTCTCCATCAATGTGCCTTTTTTGCCGCCTTCCCCTCAG
Seq C2 exon
TACCAGTACAAGAAGAAGTATGAGAAGAGTAAAGGCCACTACCACACCATACCCGATAATCTGGAGCAGCTTCACCTAAAAGAGGCCACAGAATTACAGAGTATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183091-NEB:NM_001164508:155
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.166 A=NA C2=0.384
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PU(55.2=45.7)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=31.4),PF0088013=Nebulin=PU(55.2=45.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGACCTGAAGAAACTTCACA
R:
ATACTCTGTAATTCTGTGGCCTCT
Band lengths:
198-740
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)